The boys, one from Martinez, 12, and one of Hephzibah, 14, were charged with burglary, a felony, said Columbia County sheriff's Capt. Steve Morris. He would not identifiy the boys, citing their ages. He said it was their first offense.
"A third (juvenile) is expected to be charged," Morris said.
Columbia County Juvenile Court Judge Doug Flanagan granted each of the boys a $10,000 bond at a morning preliminary hearing. They will be detained in the Regional Youth Detention Center until they post bond.
Police say that the three boys likely used an unlatched door to get inside the middle school building at the school on Flowing Wells Road in Martinez.
They dispersed fire extinguishers in the building's hallways and classrooms, including a technology lab classroom, and targeted computers, Rebecca Blair, the school's chief financial officer, has said.
The vandals also tossed red paint on a flag in classroom, ransacked and threw eggs around a teachers' lounge and ate candy, chips and other junk food throughout the building.
If the numerous computers damaged are not repairable, the damage could exceed $50,000, Morris said.